Hi Martin,

On Sep 11, 2015, at 12:44 PM, Martin Čech <mar...@bx.psu.edu> wrote:

> Hi Keith,
> 
> how is the NLP category working for you? Do you want it on Main Tool Shed?

The NLP category is working great.  I am still in the early testing phase and 
likely won't need anything in Main for some time yet, but Steve Cassidy might 
have a different opinion.

> Also I have noticed you are putting the version of your tools in the 
> repository names. I would like to discourage that as it will create confusion 
> once you update your tool (as you will be unable to update the repo name). 
> The XML wrappers have they own version tracking tag for these purposes. You 
> can learn about this and more in the Tooldev Best Practices document: 
> http://galaxy-iuc-standards.readthedocs.org/en/latest/

I was under the impression 
(http://gregvonkuster.org/galaxy-tool-shed-revisiting-best-practices-populating-repository/)
 that the best practice for package names was package_<name>_<version> and for 
tools it was <name>_<version>.  

There is also some friction (for lack of a better term) between versioning our 
web services and versioning the Galaxy wrappers that call our web services.  
For example, I might have multiple versions of the Galaxy wrappers for our 
stanford_2.0.0 services and multiple versions of the Galaxy wrappers for our 
stanford_2.1.0 services. The 2.0.0 services are not going away just because the 
2.1.0 services are available, so I think the stanford_2.0.0 and stanford_2.1.0 
Galaxy wrappers have to be separate repositories.

Having said that, I am planning to remove all my current repositories and 
repopulate as I try to automate things on my end so suggestions for naming 
strategies are always welcome.

 "There are only two hard problems in computer science, cache invalidation and 
naming things"
- author unknown


> Thank you for using Galaxy.

Thank you (all) for making Galaxy! ;-)

Cheers,
Keith

> 
> Martin
> 
> On Fri, Aug 7, 2015 at 2:57 PM Martin Čech <mar...@bx.psu.edu> wrote:
> No sub-categories yet; we plan on tackling the browsing issue by having good 
> search. :)
> 
> M.
> 
> On Fri, Aug 7, 2015 at 2:43 PM Keith Suderman <suder...@cs.vassar.edu> wrote:
> Awesome! 
> 
> One concern we have is lumping all NLP tools into a single category; are 
> sub-categories (and sub-sub-categories) possible?  However, we can start with 
> this and see what we need later.
> 
> Cheers,
> Keith
> 
> On Aug 7, 2015, at 12:25 PM, Martin Čech <mar...@bx.psu.edu> wrote:
> 
>> Dear Keith,
>> 
>> I have created 'NLP' category at https://testtoolshed.g2.bx.psu.edu for you 
>> to test out the Tool Shed environment.
>> 
>> Unless your tools are proprietary I strongly recommend using the Main Tool 
>> Shed at https://toolshed.g2.bx.psu.edu for their publishing and 
>> distribution. Let me know when you are ready with the tools and I will 
>> create the category for you in there.
>> 
>> We happily welcome every tool contribution to Galaxy! Thank you for it.
>> 
>> Martin, Galaxy Team
>> 
>> 
>> On Fri, Aug 7, 2015 at 12:56 PM Björn Grüning <bjoern.gruen...@gmail.com> 
>> wrote:
>> Hi Keith,
>> 
>> the Galaxy team can add new categories to the Tool Shed very easily and
>> such a mail is exactly the way to go. As soon as the Galaxy teams has
>> added the category you can use tools like planemo to upload all your
>> tools at once.
>> 
>> https://github.com/galaxyproject/planemo
>> 
>> Looking forward to see NLP tools in Galaxy and the Main TS! Awesome!
>> Bjoern
>> 
>> 
>> > Dear Galaxy Team,
>> >
>> > A colleague would like to upload some NLP (Natural Language
>> > Processing) tools to the Galaxy Test/Main tools sheds, but we are
>> > unclear what "categories" to use for the tools.  I see that the
>> > Main/Test tools sheds have a category for "Text Manipulation", but
>> > that does not seem appropriate for NLP tools.  Is it possible to have
>> > new categories added to the tool shed(s)?  If so, what is the
>> > process?
>> >
>> > I am just starting to investigate setting up our own local tool shed
>> > and I am coming across mentions of repository capsules and exporting
>> > tool sheds.  Would it be preferable to install the NLP tools to a
>> > local tool shed and then export a repository/capsule to be imported
>> > to the Test/Main tools sheds?  What happens if our tool shed uses a
>> > disjoint set of categories than Test/Main?
>> >
>> > Cheers, Keith
>> >
>> > ------------------------------ Research Associate Department of
>> > Computer Science Vassar College Poughkeepsie, NY
>> >
>> >
>> > ___________________________________________________________ Please
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> 
> ------------------------------
> Research Associate
> Department of Computer Science
> Vassar College
> Poughkeepsie, NY
> 
> 

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